2YM4

Crystal structure of checkpoint kinase 1 (Chk1) in complex with inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Guided Evolution of Potent and Selective Chk1 Inhibitors Through Scaffold Morphing.

Reader, J.C.Matthews, T.P.Klair, S.Cheung, K.M.J.Scanlon, J.Proisy, N.Addison, G.Ellard, J.Piton, N.Taylor, S.Cherry, M.Fisher, M.Boxall, K.Burns, S.Walton, M.I.Westwood, I.M.Hayes, A.Eve, P.Valenti, M.De Haven Brandon, A.Box, G.Van Montfort, R.L.M.Williams, D.H.Aherne, G.W.Raynaud, F.I.Eccles, S.A.Garrett, M.D.Collins, I.

(2011) J.Med.Chem. 54: 8328

  • DOI: 10.1021/jm2007326
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Pyrazolopyridine inhibitors with low micromolar potency for CHK1 and good selectivity against CHK2 were previously identified by fragment-based screening. The optimization of the pyrazolopyridines to a series of potent and CHK1-selective isoquinoline ...

    Pyrazolopyridine inhibitors with low micromolar potency for CHK1 and good selectivity against CHK2 were previously identified by fragment-based screening. The optimization of the pyrazolopyridines to a series of potent and CHK1-selective isoquinolines demonstrates how fragment-growing and scaffold morphing strategies arising from a structure-based understanding of CHK1 inhibitor binding can be combined to successfully progress fragment-derived hit matter to compounds with activity in vivo. The challenges of improving CHK1 potency and selectivity, addressing synthetic tractability, and achieving novelty in the crowded kinase inhibitor chemical space were tackled by multiple scaffold morphing steps, which progressed through tricyclic pyrimido[2,3-b]azaindoles to N-(pyrazin-2-yl)pyrimidin-4-amines and ultimately to imidazo[4,5-c]pyridines and isoquinolines. A potent and highly selective isoquinoline CHK1 inhibitor (SAR-020106) was identified, which potentiated the efficacies of irinotecan and gemcitabine in SW620 human colon carcinoma xenografts in nude mice.


    Related Citations: 
    • Identification of Inhibitors of Checkpoint Kinase 1 Through Template Screening.
      Matthews, T.P.,Klair, S.,Burns, S.,Boxall, K.,Cherry, M.,Fisher, M.,Westwood, I.M.,Walton, M.I.,Mchardy, T.,Cheung, K.J.,Van Montfort, R.,Williams, D.,Aherne, G.W.,Garrett, M.D.,Reader, J.,Collins, I.
      (2009) J.Med.Chem. 52: 4810
    • Design and Evaluation of 3,6-Di(Hetero)Aryl Imidazo[1,2-A]Pyrazines as Inhibitors of Checkpoint and Other Kinases.
      Matthews, T.P.,Mchardy, T.,Klair, S.,Boxall, K.,Fisher, M.,Cherry, M.,Allen, C.E.,Addison, G.J.,Ellard, J.,Aherne, G.W.,Westwood, I.M.,Van Montfort, R.,Garrett, M.D.,Reader, J.C.,Collins, I.
      (2010) Bioorg.Med.Chem.Lett. 20: 4045


    Organizational Affiliation

    Cancer Research UK Cancer Therapeutics Unit and Division of Structural Biology, The Institute of Cancer Research, 15 Cotswold Road, Sutton, Surrey SM2 5NG, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SERINE/THREONINE-PROTEIN KINASE CHK1
A
289Homo sapiensMutation(s): 0 
Gene Names: CHEK1 (CHK1)
EC: 2.7.11.1
Find proteins for O14757 (Homo sapiens)
Go to Gene View: CHEK1
Go to UniProtKB:  O14757
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
4YM
Query on 4YM

Download SDF File 
Download CCD File 
A
ethyl 4-[(2R)-2-(aminomethyl)morpholin-4-yl]-3-(3-cyanophenyl)-1H-pyrazolo[3,4-b]pyridine-5-carboxylate
C21 H22 N6 O3
XEAFNJRJCDEJPR-ZTOFUINCDG
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
4YMIC50: 1500 nM (100) BINDINGDB
4YMIC50: 1500 nM BINDINGMOAD
4YMIC50: 1500 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 44.810α = 90.00
b = 65.900β = 94.18
c = 57.920γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
PHASERphasing
MOSFLMdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2012-01-11
    Type: Initial release
  • Version 1.1: 2017-06-28
    Type: Data collection